HHsearch alignment for GI: 254780889 and conserved domain: cd04611
>cd04611 CBS_pair_PAS_GGDEF_DUF1_assoc This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and is thought to be involved in regulating cell surface adhesiveness in bacteria. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently found in a wide range of different proteins. CBS domains usually come in tandem repeats, which associate to form a so-called Bateman domain or a CBS pair which is reflected in this model. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains. It has been proposed that the CB
Probab=99.80 E-value=2e-19 Score=158.84 Aligned_cols=107 Identities=37% Similarity=0.598 Sum_probs=98.6
Q ss_pred CCCEEEECCCCHHHHHHHHHHHCCCCEEEECCCCEEEEEEEEHHHHCC----CCCCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf 287899465430345656676050416786688602788723545001----4344672440026786325730358999
Q gi|254780889|r 100 VNPVTISPYATLADALALMKKYSISGIPVVESDVGKLVGILTNRDVRF----ASNAQQAVGELMTRNLITVKKTVNLENA 175 (493)
Q Consensus 100 ~dPVti~pd~TI~ea~~lm~~~~is~iPVVD~~~gkLiGIVT~rDir~----~~~~~~~V~eiMt~~litv~~~~~l~eA 175 (493)
T Consensus 1 t~vvTv~p~~tv~ea~~~m~~~~i~~~~V~~~--~~~vGiiT~~Di~~~~~~~~~~~~~v~~iM~~~~~tv~~~~~~~~a 78 (111)
T cd04611 1 TQILTCPPDTSLAEAASRMRERRISSIVVVDD--GRPLGIVTERDILRLLASGPDLQTPVGEVMSSPLLTVPADTSLYDA 78 (111)
T ss_pred CCCEEECCCCCHHHHHHHHHHHCCCEEEEEEC--CEEEEEEEEHHHHHHHHHCCCCCCCHHHHHCCCCEEEECCCCHHHH
T ss_conf 97199889697999999999719988999979--9999999855989987424887788899710683399789999999
Q ss_pred HHHHHHCCCCEEEEECCCCCEEEEEEECCCHHC
Q ss_conf 999986553306457479978688980210001
Q gi|254780889|r 176 KALLHQHRIEKLLVVDDDGCCIGLITVKDIERS 208 (493)
Q Consensus 176 ~~iM~~~ki~~LPVVDe~g~LvGIIT~~DIlk~ 208 (493)
T Consensus 79 ~~~m~~~~i~~lpVvd~~~~~vGiiT~~Dilr~ 111 (111)
T cd04611 79 RQLMREHGIRHLVVVDDDGELLGLLSQTDLLQN 111 (111)
T ss_pred HHHHHHHCCEEEEEECCCCEEEEEEEHHHHHCC
T ss_conf 999997187399999469989999985684278